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Sodium in PDB 6i03: D10N Variant of Beta-Phosphoglucomutase From Lactococcus Lactis Complexed with Tetrafluoroaluminate and Beta-G6P to 1.02 A

Enzymatic activity of D10N Variant of Beta-Phosphoglucomutase From Lactococcus Lactis Complexed with Tetrafluoroaluminate and Beta-G6P to 1.02 A

All present enzymatic activity of D10N Variant of Beta-Phosphoglucomutase From Lactococcus Lactis Complexed with Tetrafluoroaluminate and Beta-G6P to 1.02 A:
5.4.2.6;

Protein crystallography data

The structure of D10N Variant of Beta-Phosphoglucomutase From Lactococcus Lactis Complexed with Tetrafluoroaluminate and Beta-G6P to 1.02 A, PDB code: 6i03 was solved by A.J.Robertson, J.P.Waltho, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 35.33 / 1.02
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 37.520, 54.280, 104.420, 90.00, 90.00, 90.00
R / Rfree (%) 15.1 / 17.5

Other elements in 6i03:

The structure of D10N Variant of Beta-Phosphoglucomutase From Lactococcus Lactis Complexed with Tetrafluoroaluminate and Beta-G6P to 1.02 A also contains other interesting chemical elements:

Fluorine (F) 4 atoms
Magnesium (Mg) 1 atom
Aluminium (Al) 1 atom

Sodium Binding Sites:

The binding sites of Sodium atom in the D10N Variant of Beta-Phosphoglucomutase From Lactococcus Lactis Complexed with Tetrafluoroaluminate and Beta-G6P to 1.02 A (pdb code 6i03). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total only one binding site of Sodium was determined in the D10N Variant of Beta-Phosphoglucomutase From Lactococcus Lactis Complexed with Tetrafluoroaluminate and Beta-G6P to 1.02 A, PDB code: 6i03:

Sodium binding site 1 out of 1 in 6i03

Go back to Sodium Binding Sites List in 6i03
Sodium binding site 1 out of 1 in the D10N Variant of Beta-Phosphoglucomutase From Lactococcus Lactis Complexed with Tetrafluoroaluminate and Beta-G6P to 1.02 A


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of D10N Variant of Beta-Phosphoglucomutase From Lactococcus Lactis Complexed with Tetrafluoroaluminate and Beta-G6P to 1.02 A within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na303

b:16.7
occ:1.00
 O A:HOH491 2.1 23.6 1.0
O A:GLU124 2.3 9.8 1.0
O A:HOH577 2.3 20.0 1.0
OD1 A:ASN127 2.4 13.3 1.0
O A:HOH473 2.4 16.1 1.0
O A:HOH561 2.8 21.0 1.0
C A:GLU124 3.4 9.0 1.0
CG A:ASN127 3.7 11.3 1.0
O A:ARG125 4.1 9.3 1.0
C A:ARG125 4.2 8.4 1.0
CA A:ARG125 4.2 9.3 1.0
N A:ARG125 4.2 9.1 1.0
O A:HOH547 4.2 39.6 1.0
O A:HOH558 4.2 26.3 1.0
N A:ASN127 4.2 8.5 1.0
CA A:GLU124 4.3 9.7 1.0
CA A:ASN127 4.5 9.4 1.0
ND2 A:ASN127 4.5 14.1 1.0
O A:HOH483 4.7 20.4 1.0
CB A:ASN127 4.7 10.0 1.0
O A:HOH562 4.7 23.2 1.0
NH1 A:ARG125 4.7 14.9 1.0
OE1 A:GLU124 4.7 27.4 1.0
CB A:GLU124 4.7 11.3 1.0
N A:MET126 4.9 7.7 1.0

Reference:

A.J.Robertson, C.Bisson, J.P.Waltho. Proton Transfer Modulates the Electrostatic Environment in A General Acid-Base Catalyzed Phosphoryl Transfer Reaction To Be Published.
Page generated: Tue Oct 8 09:31:16 2024

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